Quick Guide for Jmol

Moving the model

To rotate the model, just put the mouse pointer over the Jmol panel and drag (move the mouse while you hold its button pressed down).
- In this way, the model rotates around the X (horizontal) and Y (vertical) axes; if you nedd to rotate around Z axis (perpendicular to screen), hold down the Shift key while dragging horizontally.
To translate or move the model, hold down the Ctrl key while dragging.

To zoom in (closer) or zoom out (farther), so changing the model's apparent size, click on the Jmol panel and then use the mouse wheel, or hold the Shift key while dragging vertically.
- It is possible to open a copy of the model in an independient window, larger and resizable (even full-screen), using the icon (in the bar above the Jmol panel).

As shortcuts, you have the (sticks), (ball and stick) and (spheres, or spacefill model) icons in the bar above the Jmol panel.
You can also use the Jmol menu, with more options, under the entries Style > Scheme, Style > Atoms and Style > Bonds.

To measure a distance (such as a bond length), double-click on an atom; when you move the pointer, a dotted line will be shown, and when it is positioned on a second atom the distance will be displayed. If you double-click on the second atom, the measurement will be permanently displayed.
To measure an angle, double-click on an atom; move the pointer to the second atom and single-click; then move it to the third atom and the angle will be displayed. If you double-click on the third atom, the measurement will be permanently displayed.
To measure a dihedral angle or torsion angle, double-click on an atom; move the pointer to the second atom and single-click; then move it to the third atom and single-click; finally, move it to the fourth atom and the dihedral angle will be displayed. If you double-click on the fourth atom, the measurement will be permanently displayed.
The set of measurements may be hidden, shown again, permanently deleted or looked up in a list by means of the Measurements entry in the Jmol menu.

A more comprehensive document with help for using the mouse in Jmol can be visited outside these pages.